Assessment of microbial communities by graph partitioning in a study of soil fungi in two Alpine meadows.

ABSTRACT: Understanding how microbial community structure and diversity respond to environmental conditions is one of the main challenges in environmental microbiology. However, there is often confusion between determining the phylogenetic structure of microbial communities and assessing the distribution and diversity of molecular operational taxonomic units (MOTUs) in these communities. This has led to the use of sequence analysis tools such as multiple alignments and hierarchical clustering that are not adapted to the analysis of large and diverse data sets and not always justified for characterization of MOTUs. Here, we developed an approach combining a pairwise alignment algorithm and graph partitioning by using MCL (Markov clustering) in order to generate discrete groups for nuclear large-subun

SUBMITTER: Zinger L 

PROVIDER: S-EPMC2747849 | biostudies-literature | 2009 Sep

REPOSITORIES: biostudies-literature